| 1. |
- Stephens, Lucas, et al.
(författare)
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Archaeological assessment reveals Earth’s early transformation through land use
- 2019
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Ingår i: Science. - : American Association for the Advancement of Science. - 0036-8075 .- 1095-9203. ; 365:6456, s. 897-902
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Tidskriftsartikel (refereegranskat)abstract
- Humans began to leave lasting impacts on Earth’s surface starting 10,000 to 8000 years ago. Through a synthetic collaboration with archaeologists around the globe, Stephens et al. compiled a comprehensive picture of the trajectory of human land use worldwide during the Holocene (see the Perspective by Roberts). Hunter-gatherers, farmers, and pastoralists transformed the face of Earth earlier and to a greater extent than has been widely appreciated, a transformation that was essentially global by 3000 years before the present.Science, this issue p. 897; see also p. 865Environmentally transformative human use of land accelerated with the emergence of agriculture, but the extent, trajectory, and implications of these early changes are not well understood. An empirical global assessment of land use from 10,000 years before the present (yr B.P.) to 1850 CE reveals a planet largely transformed by hunter-gatherers, farmers, and pastoralists by 3000 years ago, considerably earlier than the dates in the land-use reconstructions commonly used by Earth scientists. Synthesis of knowledge contributed by more than 250 archaeologists highlighted gaps in archaeological expertise and data quality, which peaked for 2000 yr B.P. and in traditionally studied and wealthier regions. Archaeological reconstruction of global land-use history illuminates the deep roots of Earth’s transformation and challenges the emerging Anthropocene paradigm that large-scale anthropogenic global environmental change is mostly a recent phenomenon.
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| 2. |
- Alfoeldi, Jessica, et al.
(författare)
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The genome of the green anole lizard and a comparative analysis with birds and mammals
- 2011
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 477:7366, s. 587-591
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Tidskriftsartikel (refereegranskat)abstract
- The evolution of the amniotic egg was one of the great evolutionary innovations in the history of life, freeing vertebrates from an obligatory connection to water and thus permitting the conquest of terrestrial environments(1). Among amniotes, genome sequences are available for mammals and birds(2-4), but not for non-avian reptiles. Here we report the genome sequence of the North American green anole lizard, Anolis carolinensis. We find that A. carolinensis microchromosomes are highly syntenic with chicken microchromosomes, yet do not exhibit the high GC and low repeat content that are characteristic of avian microchromosomes(2). Also, A. carolinensis mobile elements are very young and diverse-more so than in any other sequenced amniote genome. The GC content of this lizard genome is also unusual in its homogeneity, unlike the regionally variable GC content found in mammals and birds(5). We describe and assign sequence to the previously unknown A. carolinensis X chromosome. Comparative gene analysis shows that amniote egg proteins have evolved significantly more rapidly than other proteins. An anole phylogeny resolves basal branches to illuminate the history of their repeated adaptive radiations.
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| 3. |
- Bailey-Wilson, Joan E, et al.
(författare)
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Analysis of Xq27-28 linkage in the international consortium for prostate cancer genetics (ICPCG) families
- 2012
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Ingår i: BMC Medical Genetics. - London : BioMed Central. - 1471-2350. ; 13, s. 46-
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Tidskriftsartikel (refereegranskat)abstract
- Background: Genetic variants are likely to contribute to a portion of prostate cancer risk. Full elucidation of the genetic etiology of prostate cancer is difficult because of incomplete penetrance and genetic and phenotypic heterogeneity. Current evidence suggests that genetic linkage to prostate cancer has been found on several chromosomes including the X; however, identification of causative genes has been elusive.Methods: Parametric and non-parametric linkage analyses were performed using 26 microsatellite markers in each of 11 groups of multiple-case prostate cancer families from the International Consortium for Prostate Cancer Genetics (ICPCG). Meta-analyses of the resultant family-specific linkage statistics across the entire 1,323 families and in several predefined subsets were then performed.Results: Meta-analyses of linkage statistics resulted in a maximum parametric heterogeneity lod score (HLOD) of 1.28, and an allele-sharing lod score (LOD) of 2.0 in favor of linkage to Xq27-q28 at 138 cM. In subset analyses, families with average age at onset less than 65 years exhibited a maximum HLOD of 1.8 (at 138 cM) versus a maximum regional HLOD of only 0.32 in families with average age at onset of 65 years or older. Surprisingly, the subset of families with only 2-3 affected men and some evidence of male-to-male transmission of prostate cancer gave the strongest evidence of linkage to the region (HLOD = 3.24, 134 cM). For this subset, the HLOD was slightly increased (HLOD = 3.47 at 134 cM) when families used in the original published report of linkage to Xq27-28 were excluded.Conclusions: Although there was not strong support for linkage to the Xq27-28 region in the complete set of families, the subset of families with earlier age at onset exhibited more evidence of linkage than families with later onset of disease. A subset of families with 2-3 affected individuals and with some evidence of male to male disease transmission showed stronger linkage signals. Our results suggest that the genetic basis for prostate cancer in our families is much more complex than a single susceptibility locus on the X chromosome, and that future explorations of the Xq27-28 region should focus on the subset of families identified here with the strongest evidence of linkage to this region.
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| 4. |
- Brehony, Carina, et al.
(författare)
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Implications of Differential Age Distribution of Disease-Associated Meningococcal Lineages for Vaccine Development
- 2014
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Ingår i: Clinical and Vaccine Immunology. - : American Society for Microbiology. - 1556-6811 .- 1556-679X. ; 21:6, s. 847-853
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Tidskriftsartikel (refereegranskat)abstract
- New vaccines targeting meningococci expressing serogroup B polysaccharide have been developed, with some being licensed in Europe. Coverage depends on the distribution of disease-associated genotypes, which may vary by age. It is well established that a small number of hyperinvasive lineages account for most disease, and these lineages are associated with particular antigens, including vaccine candidates. A collection of 4,048 representative meningococcal disease isolates from 18 European countries, collected over a 3-year period, were characterized by multilocus sequence typing (MLST). Age data were available for 3,147 isolates. The proportions of hyperinvasive lineages, identified as particular clonal complexes (ccs) by MLST, differed among age groups. Subjects <1 year of age experienced lower risk of sequence type 11 (ST-11) cc, ST-32 cc, and ST-269 cc disease and higher risk of disease due to unassigned STs, 1- to 4-year-olds experienced lower risk of ST-11 cc and ST-32 cc disease, 5- to 14-year-olds were less likely to experience ST-11 cc and ST-269 cc disease, and >= 25-year-olds were more likely to experience disease due to less common ccs and unassigned STs. Younger and older subjects were vulnerable to a more diverse set of genotypes, indicating the more clonal nature of genotypes affecting adolescents and young adults. Knowledge of temporal and spatial diversity and the dynamics of meningococcal populations is essential for disease control by vaccines, as coverage is lineage specific. The nonrandom age distribution of hyperinvasive lineages has consequences for the design and implementation of vaccines, as different variants, or perhaps targets, may be required for different age groups.
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| 5. |
- Craddock, Nick, et al.
(författare)
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Genome-wide association study of CNVs in 16,000 cases of eight common diseases and 3,000 shared controls
- 2010
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 464:7289, s. 713-720
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Tidskriftsartikel (refereegranskat)abstract
- Copy number variants (CNVs) account for a major proportion of human genetic polymorphism and have been predicted to have an important role in genetic susceptibility to common disease. To address this we undertook a large, direct genome-wide study of association between CNVs and eight common human diseases. Using a purpose-designed array we typed,19,000 individuals into distinct copy-number classes at 3,432 polymorphic CNVs, including an estimated similar to 50% of all common CNVs larger than 500 base pairs. We identified several biological artefacts that lead to false-positive associations, including systematic CNV differences between DNAs derived from blood and cell lines. Association testing and follow-up replication analyses confirmed three loci where CNVs were associated with disease-IRGM for Crohn's disease, HLA for Crohn's disease, rheumatoid arthritis and type 1 diabetes, and TSPAN8 for type 2 diabetes-although in each case the locus had previously been identified in single nucleotide polymorphism (SNP)-based studies, reflecting our observation that most common CNVs that are well-typed on our array are well tagged by SNPs and so have been indirectly explored through SNP studies. We conclude that common CNVs that can be typed on existing platforms are unlikely to contribute greatly to the genetic basis of common human diseases.
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| 6. |
- Edwards, Dan, et al.
(författare)
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Comparison of microstructural evolution in lwr and fast-reactor irradiations of aisi 304 and 316 stainless steels
- 2006
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Ingår i: Contribution of Materials Investigations to Improve the Safety and Performance of LWRs. - : SFEN.
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Konferensbidrag (refereegranskat)abstract
- Microstructural examination has been completed on cold-worked 316SS thimble tubes removed from a PWR after irradiation to 33 and 70 dpa at temperatures of 290 and 320°C, respectively. Characterization has also been completed on commercial heats of solution-annealed 304SS and cold-worked 316SS irradiated at 330°C to doses from 5 to 20 dpa in the BOR-60 fast-reactor at higher displacement rates compared to the thimble tubes. The data reported in this study suggest that subtle variations in Frank loop microstructure occur over the range of dose rates and total accumulated dose, but these changes are relatively minor. At 10 dpa and higher, the Frank loop microstructures are similar in the commercial SA304SS and CW316SS and the CW316SS thimble tubes, irrespective of the dose rate, and the initial starting state of the material doesn’t appear to play a large role. The cold worked dislocation structure is restructured during irradiation from a network of tangled dislocations to a uniform distribution of isolated line dislocations. The solution annealed 304 material also contained isolated dislocation lines, but qualitatively speaking the line dislocation density is much lower than in the cold worked 316SS irradiated alongside the SA304SS in BOR-60. The line dislocation microstructure in the cold worked thimble tube samples closely resembles that in the SA304SS, but whether this occurred early in the irradiation is unknown since the lowest dose is 33 dpa. Although the Frank loop microstructures over the temperature range of 275 to 320°C appear to be relatively insensitive to the displacement rate, the helium and hydrogen produced by the thermal neutron spectra of PWRs can lead to a very high density of small bubbles (≤3 nm) distributed throughout the matrix and at the grain boundaries if the irradiation dose is high enough. These bubbles are difficult to image unless careful underfocusing is employed, and may have been overlooked on the grain boundaries in previous studies. A cause for concern is that the concentration of these bubbles appears to be enhanced on grain boundaries, allowing the possibility that at higher doses the material might experience higher rates of intergranular embrittlement. Radiation-induced precipitation occurs in some conditions, but appears not to be well developed at these irradiation temperatures.
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| 7. |
- Edwards, Dan, et al.
(författare)
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MICROSTRUCTURAL EVOLUTION IN NEUTRON-IRRADIATED STAINLESS STEELS: COMPARISON OF LWR AND FAST-REACTOR IRRADIATIONS
- 2005
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Ingår i: 12th International Conference on Environmental Degradation of Materials in Nuclear Power System – Water Reactors. - : The Minerals, Metals, and Materials Society. ; , s. 419-428
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Konferensbidrag (övrigt vetenskapligt/konstnärligt)abstract
- A series of Bor-60 fast-reactor irradiations have been completed on commercial and laboratory heats of 304SS and 316SS irradiated at 330°C to doses from 5 to 20 dpa. A quantitative comparison has been made to assess critical changes in material microstructure due to differences in fast-reactor versus lightwater-reactor irradiation environments. Direct comparisons are also made between cold-worked 316SS baffle-bolt materials irradiated in Bor-60 to similar cold-worked 316SS heats removed from the PWR service after moderate to high irradiation exposures. The evolution of Frank loops, precipitates and cavities will be documented and evaluated with respect to differences in irradiated spectrum, dose rate and temperature.
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| 8. |
- Edwards, Dan, et al.
(författare)
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Nano-cavities observed in a 316SS PWR flux thimble tube irradiated to 33 and 70 dpa
- 2009
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Ingår i: Journal of Nuclear Materials. - : Elsevier. - 0022-3115 .- 1873-4820. ; 384, s. 249-255
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Tidskriftsartikel (refereegranskat)abstract
- The radiation-induced microstructure of a cold-worked 316SS flux thimble tube from an operating pressurized water reactor (PWR) was examined. Two irradiated conditions, 33 dpa at 290 °C and 70 dpa at 315 °C were examined by transmission electron microscopy. The original dislocation network had completely disappeared and was replaced by fine dispersions of Frank loops and small nano-cavities at high densities. The latter appear to be bubbles containing high levels of helium and hydrogen. An enhanced distribution of these nano-cavities was found at grain boundaries and may play a role in the increased susceptibility of the irradiated 316SS to intergranular failure of specimens from this tube during post-irradiation slow strain rate testing in PWR water conditions.
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| 9. |
- Falster, Daniel, et al.
(författare)
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AusTraits, a curated plant trait database for the Australian flora
- 2021
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Ingår i: Scientific Data. - : Nature Portfolio. - 2052-4463. ; 8:1
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Tidskriftsartikel (refereegranskat)abstract
- We introduce the AusTraits database - a compilation of values of plant traits for taxa in the Australian flora (hereafter AusTraits). AusTraits synthesises data on 448 traits across 28,640 taxa from field campaigns, published literature, taxonomic monographs, and individual taxon descriptions. Traits vary in scope from physiological measures of performance (e.g. photosynthetic gas exchange, water-use efficiency) to morphological attributes (e.g. leaf area, seed mass, plant height) which link to aspects of ecological variation. AusTraits contains curated and harmonised individual- and species-level measurements coupled to, where available, contextual information on site properties and experimental conditions. This article provides information on version 3.0.2 of AusTraits which contains data for 997,808 trait-by-taxon combinations. We envision AusTraits as an ongoing collaborative initiative for easily archiving and sharing trait data, which also provides a template for other national or regional initiatives globally to fill persistent gaps in trait knowledge.
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| 10. |
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